Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:16:19 -0400 (Thu, 12 Apr 2018).
Package 832/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
methInheritSim 1.0.0 Pascal Belleau
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: methInheritSim |
Version: 1.0.0 |
Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings methInheritSim_1.0.0.tar.gz |
StartedAt: 2018-04-12 00:59:04 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 01:03:12 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 247.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: methInheritSim.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings methInheritSim_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/methInheritSim.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘methInheritSim/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘methInheritSim’ version ‘1.0.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... NOTE Found the following hidden files and directories: .travis.yml These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘methInheritSim’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed samplesForChrSynthetic 6.892 0.004 6.899 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.6-bioc/meat/methInheritSim.Rcheck/00check.log’ for details.
methInheritSim.Rcheck/00install.out
* installing *source* package ‘methInheritSim’ ... ** R ** data ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (methInheritSim)
methInheritSim.Rcheck/tests/runTests.Rout
R version 3.4.4 (2018-03-15) -- "Someone to Lean On" Copyright (C) 2018 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > ## Run all tests presnt in the package > BiocGenerics:::testPackage("methInheritSim") Loading required package: stats4 Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, cbind, colMeans, colSums, colnames, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which, which.max, which.min Loading required package: S4Vectors Attaching package: 'S4Vectors' The following object is masked from 'package:base': expand.grid Loading required package: IRanges Loading required package: GenomeInfoDb two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) two groups detected: will calculate methylation difference as the difference of treatment (group: 1) - control (group: 0) RUNIT TEST PROTOCOL -- Thu Apr 12 01:03:10 2018 *********************************************** Number of test functions: 104 Number of errors: 0 Number of failures: 0 1 Test Suite : methInheritSim RUnit Tests - 104 test functions, 0 errors, 0 failures Number of test functions: 104 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 61.540 0.252 61.838
methInheritSim.Rcheck/methInheritSim-Ex.timings
name | user | system | elapsed | |
calculateNbDiffCase | 0.000 | 0.000 | 0.002 | |
createSampleID | 0.000 | 0.000 | 0.001 | |
dataSimExample | 0.016 | 0.000 | 0.013 | |
estBetaAlpha | 0.000 | 0.000 | 0.001 | |
estBetaBeta | 0.000 | 0.000 | 0.001 | |
fixSeed | 0.000 | 0.000 | 0.001 | |
getDiffCase | 0.020 | 0.000 | 0.022 | |
getDiffMeth | 0.052 | 0.000 | 0.054 | |
getSim | 1.176 | 0.004 | 1.180 | |
getSyntheticChr | 0.632 | 0.004 | 0.634 | |
runOnEachSynCHR | 1.696 | 0.020 | 1.720 | |
runSim | 3.312 | 0.008 | 3.324 | |
samplesForChrSynthetic | 6.892 | 0.004 | 6.899 | |
saveData | 0 | 0 | 0 | |
simEachGeneration | 0.420 | 0.000 | 0.421 | |
simInheritance | 0.752 | 0.000 | 0.751 | |
testIfAlreadyDone | 0.000 | 0.000 | 0.001 | |
validateRunSimDoubleParameters | 0 | 0 | 0 | |
validateRunSimIntegerParameters | 0.000 | 0.000 | 0.001 | |
validateRunSimLogicalParameters | 0.028 | 0.004 | 0.032 | |
validateRunSimOtherParameters | 0.028 | 0.004 | 0.031 | |
validateRunSimParameters | 0.028 | 0.004 | 0.032 | |